genome.fa.s9.2.7.7.80.10.50.1000.186.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr09 85040211 
Parameters: 2 7 7 80 10 50 1000
Length:  85040211

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   

This is table  186  of  292  ( 35004 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55463599--55463640	2	20.5	2	95	4	75	47	0	2	50	1.14
55476034--55476226	45	4.5	44	79	8	175	25	16	25	32	1.96
55476050--55476251	85	2.4	86	85	2	264	26	17	26	30	1.97
55476090--55476247	41	3.8	41	76	11	149	24	18	27	30	1.98
55476679--55476706	2	14.0	2	100	0	56	50	0	0	50	1.00
55484100--55484289	38	4.9	38	82	3	193	31	24	22	22	1.99
55491766--55491905	38	3.6	38	82	7	140	28	25	22	23	1.99
55495877--55496176	151	2.0	150	96	0	546	34	14	19	31	1.92
55499255--55499280	12	2.2	12	100	0	52	7	15	30	46	1.74
55499335--55499472	41	3.4	40	94	2	213	33	25	25	15	1.95
55499513--55499560	23	2.1	23	85	11	64	50	22	0	27	1.50
55499530--55499576	23	2.0	23	83	0	58	46	29	0	23	1.52
55499560--55499589	14	2.2	13	94	5	51	46	33	0	20	1.51
55499774--55499827	15	3.7	15	76	16	51	22	1	35	40	1.65
55499775--55499829	21	2.6	21	80	8	58	23	1	36	38	1.66
55499768--55499806	15	2.7	14	84	7	51	20	0	28	51	1.48
55499992--55500030	14	2.8	14	84	0	51	23	2	30	43	1.67
55500096--55500134	13	2.9	13	85	7	51	15	0	46	38	1.46
55500099--55500142	14	3.2	13	84	9	52	18	0	38	43	1.50
55500482--55500521	6	6.3	6	85	8	53	77	0	2	20	0.88
55500482--55500521	13	3.2	12	85	7	53	77	0	2	20	0.88
55500482--55500521	19	2.1	19	95	0	71	77	0	2	20	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55505608--55505641	18	1.9	18	88	5	52	38	2	0	58	1.13
55512794--55512912	41	2.9	41	77	6	134	30	13	26	29	1.94
55523750--55523788	18	2.2	17	86	4	51	61	5	5	28	1.39
55527019--55527244	38	5.9	38	85	1	299	21	20	25	31	1.98
55532656--55532681	2	13.0	2	100	0	52	50	0	0	50	1.00
55532768--55532983	47	4.6	46	88	2	297	25	29	11	33	1.90
55532783--55532983	94	2.1	94	92	0	330	24	29	11	33	1.91
55538823--55539049	38	5.9	38	87	1	301	21	20	25	32	1.97
55542849--55542943	29	3.3	29	77	11	77	20	22	18	38	1.93
55542949--55543076	29	4.4	29	77	3	132	28	27	9	34	1.88
55542920--55543048	58	2.2	58	88	0	186	26	26	10	36	1.89
55542891--55543089	87	2.3	87	82	6	224	25	25	12	36	1.91
55546017--55546054	19	2.0	19	100	0	76	21	5	10	63	1.46
55546795--55546891	43	2.3	43	81	3	115	30	17	27	23	1.97
55549058--55549180	40	3.1	40	77	4	140	20	29	26	24	1.99
55553991--55554083	40	2.3	40	98	0	177	22	29	22	25	1.99
55565352--55565457	40	2.6	41	85	5	137	27	27	22	22	1.99
55575955--55576034	29	2.7	29	86	5	108	27	32	15	25	1.95
55583839--55583918	29	2.7	29	86	5	108	27	32	15	25	1.95
55588226--55588281	22	2.6	22	86	5	71	46	0	0	53	1.00
55588289--55588327	13	2.9	14	85	14	55	53	0	0	46	1.00
55588768--55588839	33	2.2	33	83	11	87	50	19	5	25	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55588857--55588894	13	2.8	14	84	8	51	36	21	5	36	1.76
55591800--55591828	11	2.6	11	100	0	58	37	6	6	48	1.57
55594325--55594459	67	2.0	67	100	0	270	22	17	17	42	1.89
55599294--55599485	27	7.1	27	78	9	176	35	20	20	23	1.96
55599283--55599485	54	3.8	53	79	5	219	34	20	20	24	1.96
55599283--55599472	81	2.3	81	84	1	247	35	19	20	24	1.95
55599660--55599712	26	2.0	26	85	0	70	16	22	20	39	1.92
55599820--55599918	33	3.2	33	75	16	93	26	23	23	27	2.00
55605431--55605465	2	17.5	2	100	0	70	48	0	0	51	1.00
55609120--55609204	32	2.7	32	81	0	107	30	25	17	25	1.97
55610260--55610354	18	5.3	18	79	0	109	37	15	10	35	1.82
55610260--55610353	36	2.6	36	83	3	127	37	15	10	36	1.83
55610254--55610371	36	3.3	35	78	4	119	35	15	11	38	1.83
55610254--55610371	54	2.2	54	76	0	128	35	15	11	38	1.83
55610705--55610737	17	1.9	17	88	11	50	30	18	0	51	1.46
55611226--55611275	16	3.2	15	79	17	57	4	20	2	74	1.08
55611285--55611317	13	2.3	15	90	10	52	54	0	0	45	0.99
55611409--55611447	4	9.2	4	83	10	51	43	2	0	53	1.14
55615976--55616009	17	2.0	17	88	0	50	55	14	0	29	1.40
55623865--55623912	24	2.0	25	91	4	80	22	22	18	35	1.96
55628879--55628911	17	1.9	17	100	0	66	12	42	27	18	1.85
55631766--55631873	26	4.2	26	93	0	189	36	24	7	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55633436--55633477	22	2.1	19	86	13	57	45	0	0	54	0.99
55633436--55633474	16	2.5	15	83	8	51	46	0	0	53	1.00
55635174--55635206	9	3.7	9	91	0	57	39	24	12	24	1.89
55635174--55635208	18	1.9	18	100	0	70	37	22	11	28	1.89
55635455--55635512	25	2.3	26	82	11	68	39	3	1	55	1.27
55638335--55638385	18	2.9	18	80	5	61	64	0	0	35	0.94
55638337--55638389	11	5.2	11	80	13	60	62	0	0	37	0.96
55638332--55638391	29	2.1	29	100	0	120	66	0	0	33	0.92
55642034--55642072	18	2.3	17	86	8	53	56	2	33	7	1.41
55642158--55642231	14	5.3	14	81	0	85	36	27	13	22	1.92
55642158--55642231	28	2.6	28	95	0	130	36	27	13	22	1.92
55642158--55642240	28	3.0	28	89	3	87	37	25	12	25	1.90
55648582--55648911	41	8.0	41	84	2	367	33	20	23	22	1.97
55649164--55649214	15	3.5	15	75	2	50	23	1	27	47	1.63
55649574--55649730	78	2.0	78	100	0	314	28	14	7	50	1.69
55649871--55649942	7	10.3	7	74	16	60	77	2	0	19	0.88
55649874--55649950	14	5.4	14	81	6	84	75	3	0	20	0.96
55649888--55649959	7	10.0	7	79	5	72	73	1	0	25	0.91
55649889--55649951	29	2.2	28	88	2	90	76	1	0	22	0.88
55649888--55649962	15	5.1	15	82	4	82	73	1	0	25	0.91
55650026--55650064	18	2.2	18	86	4	53	76	0	2	20	0.90
55653203--55653251	24	2.0	24	100	0	98	30	8	20	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55656379--55656419	19	2.2	19	86	4	57	21	2	4	70	1.18
55656609--55656658	10	5.4	9	76	19	50	28	2	2	68	1.12
55656604--55656657	28	2.0	27	85	3	72	31	1	3	62	1.23
55656609--55656659	9	5.4	10	77	11	54	27	1	1	68	1.11
55662790--55662973	67	2.8	64	76	8	185	29	16	29	23	1.96
55665331--55665514	40	4.6	40	84	6	239	25	23	26	25	2.00
55667979--55668013	17	2.1	17	100	0	70	11	37	28	22	1.89
55669153--55669184	16	2.0	16	100	0	64	18	6	25	50	1.70
55673563--55673744	40	4.6	40	85	4	244	25	23	26	24	2.00
55678851--55679000	67	2.2	67	81	8	171	32	17	28	21	1.96
55678875--55679058	67	2.8	64	77	8	194	29	17	29	22	1.97
55680853--55680884	14	2.4	14	90	10	50	18	9	31	40	1.83
55680908--55681131	50	4.5	49	78	7	245	26	17	26	29	1.97
55683626--55683652	2	13.5	2	100	0	54	48	0	0	51	1.00
55686846--55686905	2	30.0	2	93	0	102	0	46	0	53	1.00
55700335--55700384	27	1.9	27	84	8	68	26	26	16	32	1.96
55703683--55703813	30	4.5	30	86	8	171	32	13	25	28	1.94
55703683--55703813	58	2.2	58	86	4	174	32	13	25	28	1.94
55711622--55711752	30	4.5	30	86	8	171	32	13	25	28	1.94
55711622--55711752	58	2.2	58	86	4	174	32	13	25	28	1.94
55715748--55715793	25	1.9	23	86	8	65	28	0	8	63	1.24
55719102--55719467	180	2.0	180	95	0	651	40	13	11	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55728563--55728665	44	2.3	45	84	3	127	30	21	13	34	1.92
55728585--55728670	46	1.9	44	90	4	136	29	24	13	32	1.94
55735658--55735764	43	2.4	43	85	4	133	29	23	13	33	1.92
55737753--55737779	14	1.9	14	100	0	54	22	7	7	62	1.46
55768335--55768807	213	2.2	213	82	2	547	23	16	23	36	1.94
55768340--55768807	71	6.6	71	81	1	497	23	16	23	36	1.94
55773509--55773548	12	3.2	12	89	3	53	12	5	2	80	0.98
55774560--55774593	17	2.0	17	88	0	50	32	5	0	61	1.20
55774889--55774944	26	2.1	27	86	3	78	30	5	0	64	1.16
55775196--55775258	25	2.5	24	84	10	72	30	1	7	60	1.35

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292